Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMC3

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
HeLa Kyoto
tissue type
cervical carcinoma
cell line
HeLa Kyoto
RNAi
n.a.
genotype
w.t.
chip antibody
SMC3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-Seq: Cells were cross-linked and scraped of the plate. The DNA was fragmented and the protein of interest was immunoprecipitated with indicated antibodies; Adaptors were ligated to the 5' and 3' ends and the library was prepared for Illumina sequencing by a qPCR amplification step. ChIP libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
94361185
Reads aligned (%)
46.8
Duplicates removed (%)
50.3
Number of peaks
37736 (qval < 1E-05)

hg38

Number of total reads
94361185
Reads aligned (%)
48.2
Duplicates removed (%)
49.0
Number of peaks
37942 (qval < 1E-05)

Base call quality data from DBCLS SRA